Direct Cell Mass Measurements Expand the Role of Small Microorganisms in Nature

. 2019 Jul 15 ; 85 (14) : . [epub] 20190701

Jazyk angličtina Země Spojené státy americké Médium electronic-print

Typ dokumentu časopisecké články, práce podpořená grantem

Perzistentní odkaz   https://www.medvik.cz/link/pmid31076432

Microbial biomass is a key parameter needed for the quantification of microbial turnover rates and their contribution to the biogeochemical element cycles. However, estimates of microbial biomass rely on empirically derived mass-to-volume relationships, and large discrepancies exist between the available empirical conversion factors. Here we report a significant nonlinear relationship between carbon mass and cell volume ([Formula: see text]; [Formula: see text]) based on direct cell mass, volume, and elemental composition measurements of 12 prokaryotic species with average volumes between 0.011 and 0.705 μm3 The carbon mass density of our measured cells ranged from 250 to 1,800 fg of C μm-3 for the measured cell volumes. Compared to other currently used models, our relationship yielded up to 300% higher carbon mass values. A compilation of our and previously published data showed that cells with larger volumes (>0.5 μm3) display a constant (carbon) mass-to-volume ratio, whereas cells with volumes below 0.5 μm3 exhibit a nonlinear increase in (carbon) mass density with decreasing volume. Small microorganisms dominate marine and freshwater bacterioplankton as well as soils and marine and terrestrial subsurface. The application of our experimentally determined conversion factors will help to quantify the true contribution of these microorganisms to ecosystem functions and global microbial biomass.IMPORTANCE Microorganisms are a major component of Earth's biosphere, and their activity significantly affects the biogeochemical cycling of bioavailable elements. To correctly determine the flux of carbon and energy in the environment, reliable estimates of microbial abundances and cellular carbon content are necessary. However, accurate assessments of cellular carbon content and dry weight are not trivial to obtain. Here we report direct measurements of cell dry and carbon mass of environmentally relevant prokaryotic microorganisms using a microfluidic mass sensor. We show a significant nonlinear relationship between carbon mass and cell volume and discuss this relationship in the light of currently used cellular mass models.

Zobrazit více v PubMed

Bar-On YM, Phillips R, Milo R. 2018. The biomass distribution on Earth. Proc Natl Acad Sci U S A 115:6506–6511. doi: 10.1073/pnas.1711842115. PubMed DOI PMC

Arrigo KR. 2005. Marine microorganisms and global nutrient cycles. Nature 437:343–348. PubMed

Cotner JB, Biddanda BA. 2002. Small players, large role: microbial influence on biogeochemical processes in pelagic aquatic ecosystems. Ecosystems 5:105–121. doi: 10.1007/s10021-001-0059-3. DOI

Offre P, Spang A, Schleper C. 2013. Archaea in biogeochemical cycles. Annu Rev Microbiol 67:437–457. doi: 10.1146/annurev-micro-092412-155614. PubMed DOI

Fuhrman JA, Ammerman JW, Azam F. 1980. Bacterioplankton in the coastal euphotic zone—distribution, activity and possible relationships with phytoplankton. Mar Biol 60:201–207. doi: 10.1007/BF00389163. DOI

Holligan PM, Harris RP, Newell RC, Harbour DS, Head RN, Linley EAS, Lucas MI, Tranter PRG, Weekley CM. 1984. Vertical distribution and partitioning of organic carbon in mixed, frontal and stratified waters of the English Channel. Mar Ecol Prog Ser 14:111–127. doi: 10.3354/meps014111. DOI

Cho BC, Azam F. 1988. Major role of bacteria in biogeochemical fluxes in the Oceans interior. Nature 332:441–443. doi: 10.1038/332441a0. DOI

Cho BC, Azam F. 1990. Biogeochemical significance of bacterial biomass in the Oceans euphotic zone. Mar Ecol Prog Ser 63:253–259. doi: 10.3354/meps063253. DOI

Simon M, Cho BC, Azam F. 1992. Significance of bacterial biomass in lakes and the ocean—comparison to phytoplankton biomass and biogeochemical implications. Mar Ecol Prog Ser 86:103–110. doi: 10.3354/meps086103. DOI

Bakken LR, Olsen RA. 1983. Buoyant densities and dry-matter contents of microorganisms: conversion of a measured biovolume into biomass. Appl Environ Microbiol 45:1188–1195. PubMed PMC

Mullin MM, Sloan PR, Eppley RW. 1966. Relationship between carbon content, cell volume, and area in phytoplankton. Limnol Oceanogr 11:307–311. doi: 10.4319/lo.1966.11.2.0307. DOI

Norland S, Heldal M, Tumyr O. 1987. On the relation between dry matter and volume of bacteria. Microb Ecol 13:95–101. doi: 10.1007/BF02011246. PubMed DOI

Bratbak G, Dundas I. 1984. Bacterial dry matter content and biomass estimates. Appl Environ Microbiol 48:755–757. PubMed PMC

Verity PG, Robertson CY, Tronzo CR, Andrews MG, Nelson JR, Sieracki ME. 1992. Relationships between cell volume and the carbon and nitrogen content of marine photosynthetic nanoplankton. Limnol Oceanogr 37:1434–1446. doi: 10.4319/lo.1992.37.7.1434. DOI

Vrede K, Heldal M, Norland S, Bratbak G. 2002. Elemental composition (C, N, P) and cell volume of exponentially growing and nutrient-limited bacterioplankton. Appl Environ Microbiol 68:2965–2971. doi: 10.1128/AEM.68.6.2965-2971.2002. PubMed DOI PMC

Bratbak G. 1985. Bacterial biovolume and biomass estimations. Appl Environ Microbiol 49:1488–1493. PubMed PMC

Lee S, Fuhrman JA. 1987. Relationships between biovolume and biomass of naturally derived marine bacterioplankton. Appl Environ Microbiol 53:1298–1303. PubMed PMC

Pelegri SP, Dolan J, Rassoulzadegan F. 1999. Use of high temperature catalytic oxidation (HTCO) to measure carbon content of microorganisms. Aquat Microb Ecol 16:273–280. doi: 10.3354/ame016273. DOI

Fagerbakke KM, Heldal M, Norland S. 1996. Content of carbon, nitrogen, oxygen, sulfur and phosphorus in native aquatic and cultured bacteria. Aquat Microb Ecol 10:15–27. doi: 10.3354/ame010015. DOI

Whitman WB, Coleman DC, Wiebe WJ. 1998. Prokaryotes: the unseen majority. Proc Natl Acad Sci U S A 95:6578–6583. doi: 10.1073/pnas.95.12.6578. PubMed DOI PMC

Fukuda R, Ogawa H, Nagata T, Koike I. 1998. Direct determination of carbon and nitrogen contents of natural bacterial assemblages in marine environments. Appl Environ Microbiol 64:3352–3358. PubMed PMC

Gundersen K, Heldal M, Norland S, Purdie DA, Knap AH. 2002. Elemental C, N, and P cell content of individual bacteria collected at the Bermuda Atlantic Time-Series Study (BATS) site. Limnol Oceanogr 47:1525–1530. doi: 10.4319/lo.2002.47.5.1525. DOI

Loferer-Krössbacher M, Klima J, Psenner R. 1998. Determination of bacterial cell dry mass by transmission electron microscopy and densitometric image analysis. Appl Environ Microbiol 64:688–694. PubMed PMC

Simon M, Azam F. 1989. Protein content and protein synthesis rates of planktonic marine bacteria. Mar Ecol Prog Ser 51:201–213. doi: 10.3354/meps051201. DOI

Krupke A, Mohr W, Laroche J, Fuchs BM, Amann RI, Kuypers MM. 2015. The effect of nutrients on carbon and nitrogen fixation by the UCYN-A–haptophyte symbiosis. ISME J 9:1635–1647. doi: 10.1038/ismej.2014.253. PubMed DOI PMC

Martínez-Pérez C, Mohr W, Löscher CR, Dekaezemacker J, Littmann S, Yilmaz P, Lehnen N, Fuchs BM, Lavik G, Schmitz RA, LaRoche J, Kuypers MMM. 2016. The small unicellular diazotrophic symbiont, UCYN-A, is a key player in the marine nitrogen cycle. Nat Microbiol 1:16163. doi: 10.1038/nmicrobiol.2016.163. PubMed DOI

Norland S. 1993. The relationship beween biomass and volume of bacteria

Romanova ND, Sazhin AF. 2010. Relationships between the cell volume and the carbon content of bacteria. Oceanology 50:522–530. doi: 10.1134/S0001437010040089. DOI

Posch T, Loferer-Krößbacher M, Gao G, Alfreider A, Pernthaler J, Psenner R. 2001. Precision of bacterioplankton biomass determination: a comparison of two fluorescent dyes, and of allometric and linear volume-to-carbon conversion factors. Aquat Microb Ecol 25:55–63. doi: 10.3354/ame025055. DOI

Könneke M, Bernhard AE, Torre RD, Walker CB, Waterbury JB, Stahl DA. 2005. Isolation of an autotrophic ammonia-oxidizing marine archaeon. Nature 437:543–546. doi: 10.1038/nature03911. PubMed DOI

Kuypers MMM, Sliekers AO, Lavik G, Schmid M, Jørgensen BB, Kuenen JG, Sinninghe Damsté JS, Strous M, Jetten MSM. 2003. Anaerobic ammonium oxidation by anammox bacteria in the Black Sea. Nature 422:608–611. doi: 10.1038/nature01472. PubMed DOI

Teeling H, Fuchs BM, Bennke CM, Krüger K, Chafee M, Kappelmann L, Reintjes G, Waldmann J, Quast C, Glöckner FO, Lucas J, Wichels A, Gerdts G, Wiltshire KH, Amann RI. 2016. Recurring patterns in bacterioplankton dynamics during coastal spring algae blooms. eLife 5:e11888. doi: 10.7554/eLife.11888. PubMed DOI PMC

Bowden WB. 1977. Comparison of two direct-count techniques for enumerating aquatic bacteria. Appl Environ Microbiol 33:1229–1232. PubMed PMC

Feijo Delgado F, Cermak N, Hecht VC, Son S, Li Y, Knudsen SM, Olcum S, Higgins JM, Chen J, Grover WH, Manalis SR. 2013. Intracellular water exchange for measuring the dry mass, water mass and changes in chemical composition of living cells. PLoS One 8:e67590. doi: 10.1371/journal.pone.0067590. PubMed DOI PMC

Bryan AK, Hecht VC, Shen W, Payer K, Grover WH, Manalis SR. 2014. Measuring single cell mass, volume, and density with dual suspended microchannel resonators. Lab Chip 14:569–576. doi: 10.1039/c3lc51022k. PubMed DOI PMC

Cermak N, Becker JW, Knudsen SM, Chisholm SW, Manalis SR, Polz MF. 2017. Direct single-cell biomass estimates for marine bacteria via Archimedes’ principle. ISME J 11:825–828. doi: 10.1038/ismej.2016.161. PubMed DOI PMC

Grover WH, Bryan AK, Diez-Silva M, Suresh S, Higgins JM, Manalis SR. 2011. Measuring single-cell density. Proc Natl Acad Sci U S A 108:10992–10996. doi: 10.1073/pnas.1104651108. PubMed DOI PMC

Lewis CL, Craig CC, Senecal AG. 2014. Mass and density measurements of live and dead gram-negative and gram-positive bacterial populations. Appl Environ Microbiol 80:3622–3631. doi: 10.1128/AEM.00117-14. PubMed DOI PMC

Redfield AC. 1958. The biological control of chemical factors in the environment. Am Sci 46:205–221. PubMed

Bertilsson S, Berglund O, Karl DM, Chisholm SW. 2003. Elemental composition of marine Prochlorococcus and Synechococcus: Implications for the ecological stoichiometry of the sea. Limnol Oceanogr 48:1721–1731. doi: 10.4319/lo.2003.48.5.1721. DOI

Malfatti F, Samo TJ, Azam F. 2010. High-resolution imaging of pelagic bacteria by atomic force microscopy and implications for carbon cycling. ISME J 4:427–439. doi: 10.1038/ismej.2009.116. PubMed DOI

Braun S, Morono Y, Littmann S, Kuypers M, Aslan H, Spivack AJ, Braun S. 2016. Size and carbon content of sub-seafloor microbial cells at Landsort Deep, Baltic Sea. Front Microbiol 7:1375. doi: 10.3389/fmicb.2016.01375. PubMed DOI PMC

Parkes RJ, Cragg BA, Bale SJ, Getliff JM, Goodman K, Rochelle PA, Fry JC, Weightman AJ, Harvey SM. 1994. Deep bacterial biosphere in Pacific Ocean sediments. Nature 371:410–413. doi: 10.1038/371410a0. DOI

Kallmeyer J, Pockalny R, Adhikari RR, Smith DC, D’Hondt S. 2012. Global distribution of microbial abundance and biomass in subseafloor sediment. Proc Natl Acad Sci U S A 109:16213–16216. doi: 10.1073/pnas.1203849109. PubMed DOI PMC

Lipp JS, Morono Y, Inagaki F, Hinrichs KU. 2008. Significant contribution of Archaea to extant biomass in marine subsurface sediments. Nature 454:991–994. doi: 10.1038/nature07174. PubMed DOI

Kitzinger K, Koch H, Lücker S, Sedlacek CJ, Herbold C, Schwarz J, Daebeler A, Mueller AJ, Lukumbuzya M, Romano S, Leisch N, Karst SM, Kirkegaard R, Albertsen M, Nielsen PH, Wagner M, Daims H. 2018. Characterization of the first “Candidatus Nitrotoga” isolate reveals metabolic versatility and separate evolution of widespread nitrite-oxidizing bacteria. mBio 9:e01186-18. doi: 10.1128/mBio.01186-18. PubMed DOI PMC

Hahnke RL, Bennke CM, Fuchs BM, Mann AJ, Rhiel E, Teeling H, Amann R, Harder J. 2015. Dilution cultivation of marine heterotrophic bacteria abundant after a spring phytoplankton bloom in the North Sea. Environ Microbiol 17:3515–3526. doi: 10.1111/1462-2920.12479. PubMed DOI

Tibbles B, Rawlings D. 1994. Characterization of nitrogen-fixing bacteria from a temperate saltmarsh lagoon, including isolates that produce ethane from acetylene. Microb Ecol 27:65–80. doi: 10.1007/BF00170115. PubMed DOI

Hahnke RL, Harder J. 2013. Phylogenetic diversity of Flavobacteria isolated from the North Sea on solid media. Syst Appl Microbiol 36:497–504. doi: 10.1016/j.syapm.2013.06.006. PubMed DOI

Holmes AJ, Costello A, Lidstrom ME, Murrell JC. 1995. Evidence that particulate methane monooxygenase and ammonia monooxygenase may be evolutionarily related. FEMS Microbiol Lett 132:203–208. doi: 10.1111/j.1574-6968.1995.tb07834.x. PubMed DOI

Kartal B, Geerts W, Jetten MSM. 2011. Cultivation, detection, and ecophysiology of anaerobic ammonium-oxidizing bacteria. Methods Enzymol 486:89–108. doi: 10.1016/B978-0-12-381294-0.00004-3. PubMed DOI

Burg TP, Godin M, Knudsen SM, Shen W, Carlson G, Foster JS, Babcock K, Manalis SR. 2007. Weighing of biomolecules, single cells and single nanoparticles in fluid. Nature 446:1066–1069. doi: 10.1038/nature05741. PubMed DOI

Najít záznam

Citační ukazatele

Pouze přihlášení uživatelé

Možnosti archivace

Nahrávání dat ...